In CNV analysis, I would like to ask concerning on:
In Genome-wide SNP arrays via Affymetrix OncoScan FFPE Express, is there any limitation to choose genome build hg18 or hg19 for probe locations?
hi
since most of databases relies now on hg19, you will get more and precise informations on hg19, most often used nowadays.
fred
Thank you for the answer.
I am just trying to find a logic for. I saw it in an credible article and it made me curious that is it possible to be a limitation in Affymetrix OncoScan FFPE Express approach or Nexus application to use hg19? Otherwise, despite that we know there are some problem in using Liftover to convert the genome build, but it supposed that we should exploit it instead of using an old genome build.
hi
liftover is a powerful tool to translate genomes but some position could be impossible to be treated. since most scripts, databases and probes are now in hg19, it's better to use the same genome form bench to paper...
fred
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